--- name: "Bio::Expression::FeatureGroup" section: "3pm" platform: "linux" package: "bioperl" version: "1.6.1-2" release: "Debian 6.0 (Squeeze)" platforms: ["linux"] url: "https://new.carta.tech/Bio::Expression::FeatureGroup" --- # Bio::Expression::FeatureGroup(3pm) a set of DNA/RNA features. ISA Bio::Expression::FeatureI ## NAME Bio::Expression::FeatureGroup - a set of DNA/RNA features. ISA Bio::Expression::FeatureI ## SYNOPSIS \# ## DESCRIPTION A set of DNA/RNA features. ## FEEDBACK ### Mailing Lists User feedback is an integral part of the evolution of this and other Bioperl modules. Send your comments and suggestions preferably to one of the Bioperl mailing lists. Your participation is much appreciated. ``` bioperl-l@bioperl.org - General discussion http://bioperl.org/wiki/Mailing_lists - About the mailing lists ``` ### Support Please direct usage questions or support issues to the mailing list: *bioperl-l@bioperl.org* rather than to the module maintainer directly. Many experienced and reponsive experts will be able look at the problem and quickly address it. Please include a thorough description of the problem with code and data examples if at all possible. ### Reporting Bugs Report bugs to the Bioperl bug tracking system to help us keep track the bugs and their resolution. Bug reports can be submitted via the web: ``` http://bugzilla.open-bio.org/ ``` ## AUTHOR Allen Day \ ## APPENDIX The rest of the documentation details each of the object methods. Internal methods are usually preceded with a \_ ### new ``` Title : new Usage : $featuregroup = Bio::Expression::FeatureGroup->new(%args); Function: create a new featuregroup object Returns : a Bio::Expression::FeatureGroup object Args : an optional hash of parameters to be used in initialization: -id -- the featuregroup ID -type -- the featuregroup type ``` ### \_initialize ``` Title : _initialize Usage : $featuregroup->_initialize(@args); Function: initialize the featuregroup object Returns : nothing Args : @args ``` ### type ``` Title : type Usage : $featuregroup->type($optional_arg); Function: get/set the type of the featuregroup Comments: this is probably going to be a string like "quality control", "mismatch blah blah", etc. Returns : the featuregroup type Args : a new value for the featuregroup type ``` ### id ``` Title : id Usage : $featuregroup->id($optional_arg); Function: get/set the id of the featuregroup Returns : the featuregroup id Args : a new value for the featuregroup id ``` ### standard\_deviation ``` Title : standard_deviation Usage : $featuregroup->standard_deviation($optional_arg); Function: get/set the standard deviation of the featuregroup value Returns : the featuregroup standard deviation Args : a new value for the featuregroup standard deviation Notes : this method does no calculation, it merely holds a value ``` ### quantitation ``` Title : quantitation Usage : $featuregroup->quantitation($optional_arg); Function: get/set the quantitation of the featuregroup Returns : the featuregroup's quantitated value Args : a new value for the featuregroup's quantitated value Notes : this method does no calculation, it merely holds a value ``` ### quantitation\_units ``` Title : quantitation_units Usage : $featuregroup->quantitation_units($optional_arg); Function: get/set the quantitation units of the featuregroup Returns : the featuregroup's quantitated value units Args : a new value for the featuregroup's quantitated value units ``` ### presence ``` Title : presence Usage : $featuregroup->presence($optional_arg); Function: get/set the presence call of the featuregroup Returns : the featuregroup's presence call Args : a new value for the featuregroup's presence call ``` ### add\_feature ``` Title : add_feature Usage : $feature_copy = $featuregroup->add_feature($feature); Function: add a feature to the featuregroup Returns : see this_feature() Args : a Bio::Expression::FeatureI compliant object ``` ### this\_feature ``` Title : this_feature Usage : $feature = $featuregroup->this_feature Function: access the last feature added to the featuregroup Returns : the last feature added to the featuregroup Args : none ``` ### each\_feature ``` Title : each_feature Usage : @features = $featuregroup->each_feature Function: returns a list of Bio::Expression::FeatureI compliant objects Returns : a list of objects Args : none ``` ### each\_feature\_quantitation ``` Title : each_feature_quantitation Usage : @featurequantitions = $featuregroup->each_feature_quantitation; Function: returns an list of quantitations of the features in the featuregroup Returns : a list of numeric values Args : none ``` ### is\_qc ``` Title : is_qc Usage : $is_quality_control = $featuregroup->is_qc Function: get/set whether or not the featuregroup is used for quality control purposes Returns : a boolean (equivalent) Args : a new value ```